TY - JOUR
T1 - OncomiR
T2 - An online resource for exploring pan-cancer microRNA dysregulation
AU - Wong, Nathan W.
AU - Chen, Yuhao
AU - Chen, Shuai
AU - Wang, Xiaowei
N1 - Funding Information:
This work was supported by the National Institutes of Health [Grants R01GM089784 and R01DE026471].
Publisher Copyright:
© The Author 2017. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.
PY - 2018/2/15
Y1 - 2018/2/15
N2 - Summary Dysregulation of microRNAs (miRNAs) is extensively associated with cancer development and progression. miRNAs have been shown to be biomarkers for predicting tumor formation and outcome. However, identification of the relationships between miRNA expression and tumor characteristics can be difficult and time-consuming without appropriate bioinformatics expertise. To address this issue, we present OncomiR, an online resource for exploring miRNA dysregulation in cancer. Using combined miRNA-seq, RNA-seq and clinical data from The Cancer Genome Atlas, we systematically performed statistical analyses to identify dysregulated miRNAs that are associated with tumor development and progression in most major cancer types. Additional analyses further identified potential miRNA-gene target interactions in tumors. These results are stored in a backend database and presented through a web server interface. Moreover, through a backend bioinformatics pipeline, OncomiR can also perform dynamic analysis with custom miRNA selections for in-depth characterization of miRNAs in cancer. Availability and implementation The OncomiR website is freely accessible at www.oncomir.org. Contact xiaowei.wang@wustl.edu Supplementary informationSupplementary dataare available at Bioinformatics online.
AB - Summary Dysregulation of microRNAs (miRNAs) is extensively associated with cancer development and progression. miRNAs have been shown to be biomarkers for predicting tumor formation and outcome. However, identification of the relationships between miRNA expression and tumor characteristics can be difficult and time-consuming without appropriate bioinformatics expertise. To address this issue, we present OncomiR, an online resource for exploring miRNA dysregulation in cancer. Using combined miRNA-seq, RNA-seq and clinical data from The Cancer Genome Atlas, we systematically performed statistical analyses to identify dysregulated miRNAs that are associated with tumor development and progression in most major cancer types. Additional analyses further identified potential miRNA-gene target interactions in tumors. These results are stored in a backend database and presented through a web server interface. Moreover, through a backend bioinformatics pipeline, OncomiR can also perform dynamic analysis with custom miRNA selections for in-depth characterization of miRNAs in cancer. Availability and implementation The OncomiR website is freely accessible at www.oncomir.org. Contact xiaowei.wang@wustl.edu Supplementary informationSupplementary dataare available at Bioinformatics online.
UR - http://www.scopus.com/inward/record.url?scp=85041914097&partnerID=8YFLogxK
U2 - 10.1093/bioinformatics/btx627
DO - 10.1093/bioinformatics/btx627
M3 - Article
C2 - 29028907
AN - SCOPUS:85041914097
SN - 1367-4803
VL - 34
SP - 713
EP - 715
JO - Bioinformatics
JF - Bioinformatics
IS - 4
ER -